/***************************************************************************
 *   Copyright (C) 2007 by Alexandre Masselot,,,   *
 *   alex@alex-laptop   *
 *                                                                         *
 *   This program is free software; you can redistribute it and/or modify  *
 *   it under the terms of the GNU Library General Public License as       *
 *   published by the Free Software Foundation; either version 2 of the    *
 *   License, or (at your option) any later version.                       *
 *                                                                         *
 *   This program is distributed in the hope that it will be useful,       *
 *   but WITHOUT ANY WARRANTY; without even the implied warranty of        *
 *   MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the         *
 *   GNU General Public License for more details.                          *
 *                                                                         *
 *   You should have received a copy of the GNU Library General Public     *
 *   License along with this program; if not, write to the                 *
 *   Free Software Foundation, Inc.,                                       *
 *   59 Temple Place - Suite 330, Boston, MA  02111-1307, USA.             *
 ***************************************************************************/
#ifndef BOLPEPTIDESPECTRUMMATCH_H
#define BOLPEPTIDESPECTRUMMATCH_H

#include "peptide.h"
#include "spectrumlcmsms.h"
#include "score/hasmetascore.h"
#include "score/scoredefault.h"

namespace bol {

/**
  A match of an msms spectrum versus a spectrum + scores

  @author Alexandre Masselot,GeneBio,http://www.genebio.com, <alexandre.masselot@gmail.com>
 */
  class PeptideSpectrumMatch:public HasMetaScore{
    private:
      Peptide* m_peptide;
      SpectrumLcmsms* m_spectrum;
      MetaScorePtr m_score;
      int m_charge;
    public:
    /**
     *
     * @param  *score a score instance
     */
      PeptideSpectrumMatch(MetaScore *score=NULL);

      ~PeptideSpectrumMatch();

  
      MetaScorePtr score()const{
        return m_score;
      }

      void setScore(MetaScorePtr& score){
        m_score=score;
      }

      double scoreValue() const {
        return m_score->mainScore();
      }

      void setCharge(int theValue) {
        m_charge = theValue;
      }
  

      int charge() const {
        return m_charge;
      }
  
      void setPeptide(Peptide* theValue) {
        m_peptide = theValue;
      }
  

      Peptide* peptide() const {
        return m_peptide;
      }

      void setSpectrum(SpectrumLcmsms* theValue) {
        m_spectrum = theValue;
      }
  

      SpectrumLcmsms* spectrum() const {
        return m_spectrum;
      }

  };
  typedef boost::shared_ptr<PeptideSpectrumMatch> PeptideSpectrumMatchPtr;

}

#endif
